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DBSubLoc specifications

Information


Unique identifier OMICS_04484
Name DBSubLoc
Alternative name Database of Protein Subcellular Localization
Restrictions to use None
Maintained No

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Publication for Database of Protein Subcellular Localization

DBSubLoc citations

 (6)
library_books

Proteomic Analysis and Identification of Cellular Interactors of the Giant Ubiquitin Ligase HERC2

2014
J Proteome Res
PMCID: 4324439
PMID: 25476789
DOI: 10.1021/pr501005v

[…] es, and the Memorial Sloan-Kettering Cancer Center’s Cancer Cell Map. The basal pathway and network data were supplemented with information obtained from Genomatix’ LitInspector and MatBase, UniProt, DBSubLoc, STITCH, Gene Expression Atlas, Reactome, and ENCODE. Nodes were color-coded according to NWD score with the median score 2.12. […]

library_books

Computer aided selection of candidate vaccine antigens

2010
Immunome Res
PMCID: 2981880
PMID: 21067543
DOI: 10.1186/1745-7580-6-S2-S1

[…] ambiguously. This paucity is particularly acute for certain important but less well-studied kinds of secreted protein, such as those secreted by the type III secretion system. While databases such as DBSubLoc [] have been developed, their utility is open to question. So too is the extraction of datasets directly from SWISS-PROT. Here the inherent uncertainty in some of the available annotation can […]

library_books

Semi supervised protein subcellular localization

2009
BMC Bioinformatics
PMCID: 2648770
PMID: 19208149
DOI: 10.1186/1471-2105-10-S1-S47

[…] approaches, SVM is popularly adopted in bioinformatics and is shown to perform relatively better compared to many others. There are also a large number of specialized databases are exploited such as DBSubLoc [], ESLPred [], HSLpred [], LOCSVMPSI [], LOC3d [], PSORTb [], PSORT [], LOCtree [], BaCelLo [], TargetP [], SecretomeP [], PredictNLS [], WoLF PSORT [], Proteome Analyst [], and CELLO [].In […]

call_split

Genome wide subcellular localization of putative outer membrane and extracellular proteins in Leptospira interrogans serovar Lai genome using bioinformatics approaches

2008
BMC Genomics
PMCID: 2387172
PMID: 18423054
DOI: 10.1186/1471-2164-9-181
call_split See protocol

[…] Since the number of outputs for EX and OM proteins agreed by all three predictions was low (low recall rate), we used structure-based homology information from GTD and/or homology search results from DBSubloc prediction as the additional information for inferring protein localization. Using this information, we assessed the likelihood of the "non-consensus vote" outputs (see material and methods) […]

library_books

The relationships between the isoelectric point and: length of proteins, taxonomy and ecology of organisms

2007
BMC Genomics
PMCID: 1905920
PMID: 17565672
DOI: 10.1186/1471-2164-8-163

[…] to mitochondria (2021) or plastids (1173) were downloaded from UniProt database []. Proteomes of 12 subcellular localizations (in sum 13,039 proteins) were extracted from non-redundant datasets from DBSubLoc database [].Isoelectric points were calculated using the standard iterative algorithm [,] that gives relatively precise results of pI calculations for raw protein sequences [,]. The algorithm […]

library_books

PhosphoregDB: The tissue and sub cellular distribution of mammalian protein kinases and phosphatases

2006
BMC Bioinformatics
PMCID: 1395337
PMID: 16504016
DOI: 10.1186/1471-2105-7-82

[…] sequences were identified using NetNES, the prosite bipartite nuclear localization motif PS00015 and predictNLS [-]. Additionally we provide links into a public database of sub-cellular localizations DBSubLoc [,]. For every entry, all available evidence used to make a decision on localization is presented to the user. […]

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DBSubLoc institution(s)
Institute of Bioinformatics, Department of Biological Sciences and Biotechnology, Tsinghua University, Beijing, China

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